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Volumn 110, Issue 31, 2013, Pages 12798-12803

Twelve previously unknown phage genera are ubiquitous in global oceans

Author keywords

Model systems; Phage genomics; Phage taxonomy; Prophage; Queuosine biosynthesis

Indexed keywords

ARTICLE; BACTERIOPHAGE; BACTERIOPHAGE TYPING; BACTEROIDETES; BIOSPHERE; CELLULOPHAGA BALTICA; GENOME; MARINE ENVIRONMENT; METAGENOMICS; MICROVIRIDAE; NEW GENUS; NONHUMAN; NUCLEOTIDE METABOLISM; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEOMICS; SEA;

EID: 84881090889     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1305956110     Document Type: Article
Times cited : (141)

References (56)
  • 1
    • 44449137093 scopus 로고    scopus 로고
    • The microbial engines that drive Earth's biogeochemical cycles
    • Falkowski PG, Fenchel T, Delong EF (2008) The microbial engines that drive Earth's biogeochemical cycles. Science 320(5879):1034-1039.
    • (2008) Science , vol.320 , Issue.5879 , pp. 1034-1039
    • Falkowski, P.G.1    Fenchel, T.2    Delong, E.F.3
  • 2
    • 83655191021 scopus 로고    scopus 로고
    • Marine viruses: Truth or dare
    • Breitbart M (2012) Marine viruses: Truth or dare. Annu Rev Mar Sci 4:5.1-5.24.
    • (2012) Annu Rev Mar Sci , vol.4 , pp. 1-24
    • Breitbart, M.1
  • 3
    • 84874530236 scopus 로고    scopus 로고
    • The Pacific Ocean virome (POV): A marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology
    • Hurwitz BL, Sullivan MB (2013) The Pacific Ocean virome (POV): A marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology. PLoS ONE 8(2):e57355.
    • (2013) PLoS ONE , vol.8 , Issue.2
    • Hurwitz, B.L.1    Sullivan, M.B.2
  • 4
    • 33846122664 scopus 로고    scopus 로고
    • Genome and proteome characterization of the psychrophilic Flavobacterium bacteriophage 11b
    • Borriss M, et al. (2007) Genome and proteome characterization of the psychrophilic Flavobacterium bacteriophage 11b. Extremophiles 11(1):95-104.
    • (2007) Extremophiles , vol.11 , Issue.1 , pp. 95-104
    • Borriss, M.1
  • 6
    • 33748743454 scopus 로고    scopus 로고
    • Dominant bacteria in soils of Marble Point and Wright Valley, Victoria Land, Antarctica
    • Aislabie JM, et al. (2006) Dominant bacteria in soils of Marble Point and Wright Valley, Victoria Land, Antarctica. Soil Biol Biochem 38:3041-3056.
    • (2006) Soil Biol Biochem , vol.38 , pp. 3041-3056
    • Aislabie, J.M.1
  • 8
    • 38549170387 scopus 로고    scopus 로고
    • Strong coastocean and surface-depth gradients in prokaryotic assemblage structure and activity in a coastal transition zone region
    • Baltar F, Aristegui J, Gasol JM, Hernandez-Leon S, Herndl GJ (2007) Strong coastocean and surface-depth gradients in prokaryotic assemblage structure and activity in a coastal transition zone region. Aquat Microb Ecol 50(1):63-74.
    • (2007) Aquat Microb Ecol , vol.50 , Issue.1 , pp. 63-74
    • Baltar, F.1    Aristegui, J.2    Gasol, J.M.3    Hernandez-Leon, S.4    Herndl, G.J.5
  • 10
    • 65249102784 scopus 로고    scopus 로고
    • Bacteroides induce higher IgA production than Lactobacillus by increasing activation-induced cytidine deaminase expression in B cells in murine Peyer's patches
    • Yanagibashi T, et al. (2009) Bacteroides induce higher IgA production than Lactobacillus by increasing activation-induced cytidine deaminase expression in B cells in murine Peyer's patches. Biosci Biotechnol Biochem 73(2):372-377.
    • (2009) Biosci Biotechnol Biochem , vol.73 , Issue.2 , pp. 372-377
    • Yanagibashi, T.1
  • 11
    • 84876836241 scopus 로고    scopus 로고
    • Ecology of marine Bacteroidetes: A comparative genomics approach
    • 10.1038/ismej.2012.1169
    • Fernández-Gómez B, et al. (2013) Ecology of marine Bacteroidetes: A comparative genomics approach. ISME J 7(5):1026-1037, 10.1038/ismej.2012.1169.
    • (2013) ISME J , vol.7 , Issue.5 , pp. 1026-1037
    • Fernández-Gómez, B.1
  • 12
    • 8744282719 scopus 로고    scopus 로고
    • Changes in bacterioplankton composition under different phytoplankton regimens
    • Pinhassi J, et al. (2004) Changes in bacterioplankton composition under different phytoplankton regimens. Appl Environ Microbiol 70(11):6753-6766.
    • (2004) Appl Environ Microbiol , vol.70 , Issue.11 , pp. 6753-6766
    • Pinhassi, J.1
  • 13
    • 35948993040 scopus 로고    scopus 로고
    • Large variabilities in host strain susceptibility and phage host range govern interactions between lytic marine phages and their Flavobacterium hosts
    • Holmfeldt K, Middelboe M, Nybroe O, Riemann L (2007) Large variabilities in host strain susceptibility and phage host range govern interactions between lytic marine phages and their Flavobacterium hosts. Appl Environ Microbiol 73(21):6730-6739.
    • (2007) Appl Environ Microbiol , vol.73 , Issue.21 , pp. 6730-6739
    • Holmfeldt, K.1    Middelboe, M.2    Nybroe, O.3    Riemann, L.4
  • 14
    • 0142152459 scopus 로고    scopus 로고
    • Genome sequences of two closely related Vibrio parahaemolyticus phages, VP16T and VP16C
    • Seguritan V, Feng IW, Rohwer F, Swift M, Segall AM (2003) Genome sequences of two closely related Vibrio parahaemolyticus phages, VP16T and VP16C. J Bacteriol 185(21): 6434-6447.
    • (2003) J Bacteriol , vol.185 , Issue.21 , pp. 6434-6447
    • Seguritan, V.1    Feng, I.W.2    Rohwer, F.3    Swift, M.4    Segall, A.M.5
  • 15
    • 0021868497 scopus 로고
    • Isolation and characterization of the bacteriophage T4 tail-associated lysozyme
    • Nakagawa H, Arisaka F, Ishii S (1985) Isolation and characterization of the bacteriophage T4 tail-associated lysozyme. J Virol 54(2):460-466.
    • (1985) J Virol , vol.54 , Issue.2 , pp. 460-466
    • Nakagawa, H.1    Arisaka, F.2    Ishii, S.3
  • 16
    • 49149115195 scopus 로고    scopus 로고
    • Unifying classical and molecular taxonomic classification: Analysis of the Podoviridae using BLASTP-based tools
    • Lavigne R, Seto D, Mahadevan P, Ackermann HW, Kropinski AM (2008) Unifying classical and molecular taxonomic classification: Analysis of the Podoviridae using BLASTP-based tools. Res Microbiol 159(5):406-414.
    • (2008) Res Microbiol , vol.159 , Issue.5 , pp. 406-414
    • Lavigne, R.1    Seto, D.2    Mahadevan, P.3    Ackermann, H.W.4    Kropinski, A.M.5
  • 18
    • 84856148335 scopus 로고    scopus 로고
    • Cultivated singlestranded DNA phages that infect marine Bacteroidetes prove difficult to detect with DNA-binding stains
    • Holmfeldt K, Odić D, Sullivan MB, Middelboe M, Riemann L (2012) Cultivated singlestranded DNA phages that infect marine Bacteroidetes prove difficult to detect with DNA-binding stains. Appl Environ Microbiol 78(3):892-894.
    • (2012) Appl Environ Microbiol , vol.78 , Issue.3 , pp. 892-894
    • Holmfeldt, K.1    Odić, D.2    Sullivan, M.B.3    Middelboe, M.4    Riemann, L.5
  • 19
    • 84870667528 scopus 로고    scopus 로고
    • On the nature of mycobacteriophage diversity and host preference
    • Science Education Alliance Phage Hunters Advancing Genomics And Evolutionary Science Sea-Phages Program
    • Jacobs-Sera D, et al.; Science Education Alliance Phage Hunters Advancing Genomics And Evolutionary Science Sea-Phages Program (2012) On the nature of mycobacteriophage diversity and host preference. Virology 434(2):187-201.
    • (2012) Virology , vol.434 , Issue.2 , pp. 187-201
    • Jacobs-Sera, D.1
  • 20
    • 77957955708 scopus 로고    scopus 로고
    • Mycobacteriophages: Genes and genomes
    • Hatfull GF (2010) Mycobacteriophages: Genes and genomes. Annu Rev Microbiol 64: 331-356.
    • (2010) Annu Rev Microbiol , vol.64 , pp. 331-356
    • Hatfull, G.F.1
  • 21
    • 0031734452 scopus 로고    scopus 로고
    • Bacteriophage diversity in the North Sea
    • Wichels A, et al. (1998) Bacteriophage diversity in the North Sea. Appl Environ Microbiol 64(11):4128-4133.
    • (1998) Appl Environ Microbiol , vol.64 , Issue.11 , pp. 4128-4133
    • Wichels, A.1
  • 22
    • 70349458100 scopus 로고    scopus 로고
    • The genomic basis of trophic strategy in marine bacteria
    • Lauro FM, et al. (2009) The genomic basis of trophic strategy in marine bacteria. Proc Natl Acad Sci USA 106(37):15527-15533.
    • (2009) Proc Natl Acad Sci USA , vol.106 , Issue.37 , pp. 15527-15533
    • Lauro, F.M.1
  • 23
    • 84874193410 scopus 로고    scopus 로고
    • Abundant SAR11 viruses in the ocean
    • Zhao Y, et al. (2013) Abundant SAR11 viruses in the ocean. Nature 494(7437):357-360.
    • (2013) Nature , vol.494 , Issue.7437 , pp. 357-360
    • Zhao, Y.1
  • 24
    • 0028976545 scopus 로고
    • Genetic diversity of related vibrophages isolated from marine environments around Florida and Hawaii, USA
    • Kellogg CA, Rose JB, Jiang SC, Thurmond JM, Paul JH (1995) Genetic diversity of related vibrophages isolated from marine environments around Florida and Hawaii, USA. Mar Ecol Prog Ser 120:89-98.
    • (1995) Mar Ecol Prog ser , vol.120 , pp. 89-98
    • Kellogg, C.A.1    Rose, J.B.2    Jiang, S.C.3    Thurmond, J.M.4    Paul, J.H.5
  • 25
    • 70350439599 scopus 로고    scopus 로고
    • Genomic analysis of multiple Roseophage SIO1 strains
    • Angly F, et al. (2009) Genomic analysis of multiple Roseophage SIO1 strains. Environ Microbiol 11(11):2863-2873.
    • (2009) Environ Microbiol , vol.11 , Issue.11 , pp. 2863-2873
    • Angly, F.1
  • 26
    • 0036719291 scopus 로고    scopus 로고
    • Imbroglios of viral taxonomy: Genetic exchange and failings of phenetic approaches
    • Lawrence JG, Hatfull GF, Hendrix RW (2002) Imbroglios of viral taxonomy: Genetic exchange and failings of phenetic approaches. J Bacteriol 184(17):4891-4905.
    • (2002) J Bacteriol , vol.184 , Issue.17 , pp. 4891-4905
    • Lawrence, J.G.1    Hatfull, G.F.2    Hendrix, R.W.3
  • 27
    • 84864387036 scopus 로고    scopus 로고
    • Phylogenomics of T4 cyanophages: Lateral gene transfer in the 'core' and origins of host genes
    • Ignacio-Espinoza JC, Sullivan MB (2012) Phylogenomics of T4 cyanophages: Lateral gene transfer in the 'core' and origins of host genes. Environ Microbiol 14(8):2113-2126.
    • (2012) Environ Microbiol , vol.14 , Issue.8 , pp. 2113-2126
    • Ignacio-Espinoza, J.C.1    Sullivan, M.B.2
  • 28
    • 21344461027 scopus 로고    scopus 로고
    • Three prochlorococcus cyanophage genomes: Signature features and ecological interpretations
    • Sullivan MB, Coleman ML, Weigele P, Rohwer F, Chisholm SW (2005) Three Prochlorococcus cyanophage genomes: Signature features and ecological interpretations. PLoS Biol 3(5):e144.
    • (2005) PLoS Biol , vol.3 , Issue.5
    • Sullivan, M.B.1    Coleman, M.L.2    Weigele, P.3    Rohwer, F.4    Chisholm, S.W.5
  • 29
    • 67649173541 scopus 로고    scopus 로고
    • Genome sequences of two novel phages infecting marine roseobacters
    • Zhao Y, Wang K, Jiao N, Chen F (2009) Genome sequences of two novel phages infecting marine roseobacters. Environ Microbiol 11(8):2055-2064.
    • (2009) Environ Microbiol , vol.11 , Issue.8 , pp. 2055-2064
    • Zhao, Y.1    Wang, K.2    Jiao, N.3    Chen, F.4
  • 30
    • 84857123340 scopus 로고    scopus 로고
    • Cyanophage tRNAs may have a role in cross-infectivity of oceanic Prochlorococcus and Synechococcus hosts
    • Enav H, Béjà O, Mandel-Gutfreund Y (2012) Cyanophage tRNAs may have a role in cross-infectivity of oceanic Prochlorococcus and Synechococcus hosts. ISME J 6(3): 619-628.
    • (2012) ISME J , vol.6 , Issue.3 , pp. 619-628
    • Enav, H.1    Béjà, O.2    Mandel-Gutfreund, Y.3
  • 31
    • 84858171816 scopus 로고    scopus 로고
    • Chaperonin-mediated folding of viral proteins
    • eds Rossmann MG, Rao VB (Springer, New York)
    • Hildenbrand ZL, Bernal RA (2012) Chaperonin-mediated folding of viral proteins. Advances in Experimental Medicine and Biology, eds Rossmann MG, Rao VB (Springer, New York), Vol 726, pp 307-324.
    • (2012) Advances in Experimental Medicine and Biology , vol.726 , pp. 307-324
    • Hildenbrand, Z.L.1    Bernal, R.A.2
  • 32
    • 79955894106 scopus 로고    scopus 로고
    • Microviridae goes temperate: Microvirus-related proviruses reside in the genomes of Bacteroidetes
    • Krupovic M, Forterre P (2011) Microviridae goes temperate: Microvirus-related proviruses reside in the genomes of Bacteroidetes. PLoS ONE 6(5):e19893.
    • (2011) PLoS ONE , vol.6 , Issue.5
    • Krupovic, M.1    Forterre, P.2
  • 33
    • 84455192135 scopus 로고    scopus 로고
    • Microviridae: Microviruses and gokushoviruses
    • (Wiley, Chichester, UK)
    • Cherwa JE, Fane BA (2011) Microviridae: Microviruses and gokushoviruses. Encyclopedia of Life Sciences (Wiley, Chichester, UK).
    • (2011) Encyclopedia of Life Sciences
    • Cherwa, J.E.1    Fane, B.A.2
  • 34
    • 34247873193 scopus 로고    scopus 로고
    • Structure of acidic O-specific polysaccharide from the marine bacterium Cellulophaga baltica
    • Tomshich SV, et al. (2007) Structure of acidic O-specific polysaccharide from the marine bacterium Cellulophaga baltica. Bioorg Khim 33(1):91-95.
    • (2007) Bioorg Khim , vol.33 , Issue.1 , pp. 91-95
    • Tomshich, S.V.1
  • 35
    • 84865167614 scopus 로고    scopus 로고
    • Archaeal virus with exceptional virion architecture and the largest single-stranded DNA genome
    • Mochizuki T, et al. (2012) Archaeal virus with exceptional virion architecture and the largest single-stranded DNA genome. Proc Natl Acad Sci USA 109(33):13386-13391.
    • (2012) Proc Natl Acad Sci USA , vol.109 , Issue.33 , pp. 13386-13391
    • Mochizuki, T.1
  • 36
    • 0030057090 scopus 로고    scopus 로고
    • Lysogenic conversion by a filamentous phage encoding cholera toxin
    • Waldor MK, Mekalanos JJ (1996) Lysogenic conversion by a filamentous phage encoding cholera toxin. Science 272(5270):1910-1914.
    • (1996) Science , vol.272 , Issue.5270 , pp. 1910-1914
    • Waldor, M.K.1    Mekalanos, J.J.2
  • 37
    • 0038813931 scopus 로고    scopus 로고
    • Genome sequence of Chlamydophila caviae (Chlamydia psittaci GPIC): Examining the role of niche-specific genes in the evolution of the Chlamydiaceae
    • Read TD, et al. (2003) Genome sequence of Chlamydophila caviae (Chlamydia psittaci GPIC): Examining the role of niche-specific genes in the evolution of the Chlamydiaceae. Nucleic Acids Res 31(8):2134-2147.
    • (2003) Nucleic Acids Res , vol.31 , Issue.8 , pp. 2134-2147
    • Read, T.D.1
  • 38
    • 33645855614 scopus 로고    scopus 로고
    • Temperate and lytic cyanophages from the Gulf of Mexico
    • McDaniel LD, delaRosa M, Paul JH (2006) Temperate and lytic cyanophages from the Gulf of Mexico. J Mar Biol Assoc U K 86:517-527.
    • (2006) J Mar Biol Assoc U K , vol.86 , pp. 517-527
    • McDaniel, L.D.1    Delarosa, M.2    Paul, J.H.3
  • 39
    • 33846408740 scopus 로고    scopus 로고
    • 5500 Phages examined in the electron microscope
    • Ackermann HW (2007) 5500 Phages examined in the electron microscope. Arch Virol 152(2):227-243.
    • (2007) Arch Virol , vol.152 , Issue.2 , pp. 227-243
    • Ackermann, H.W.1
  • 40
    • 84883136726 scopus 로고    scopus 로고
    • Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses
    • 10.1038/ismej.2013.1067
    • Brum JR, Schenck RO, Sullivan MB (2013) Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses. ISME J, 10.1038/ismej.2013.1067.
    • (2013) ISME J
    • Brum, J.R.1    Schenck, R.O.2    Sullivan, M.B.3
  • 41
    • 84865812926 scopus 로고    scopus 로고
    • An atomic force microscopy investigation of cyanophage structure
    • Kuznetsov YG, Chang SC, Credaroli A, Martiny J, McPherson A (2012) An atomic force microscopy investigation of cyanophage structure. Micron 43(12):1336-1342.
    • (2012) Micron , vol.43 , Issue.12 , pp. 1336-1342
    • Kuznetsov, Y.G.1    Chang, S.C.2    Credaroli, A.3    Martiny, J.4    McPherson, A.5
  • 42
    • 0345672731 scopus 로고    scopus 로고
    • The complete genome sequence of PM2, the first lipid-containing bacterial virus to be isolated
    • Männistö RH, Kivelä HM, Paulin L, Bamford DH, Bamford JK (1999) The complete genome sequence of PM2, the first lipid-containing bacterial virus to be isolated. Virology 262(2):355-363.
    • (1999) Virology , vol.262 , Issue.2 , pp. 355-363
    • Männistö, R.H.1    Kivelä, H.M.2    Paulin, L.3    Bamford, D.H.4    Bamford, J.K.5
  • 43
    • 0343228391 scopus 로고
    • Properties of a marine RNA-containing bacteriophage
    • Hidaka T, Ichida K-I (1976) Properties of a marine RNA-containing bacteriophage. Mem Fac Fish Kagoshima Univ 25:77-89.
    • (1976) Mem Fac Fish Kagoshima Univ , vol.25 , pp. 77-89
    • Hidaka, T.1    Ichida, K.-I.2
  • 44
    • 84873343920 scopus 로고    scopus 로고
    • A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes
    • 10.1186/1471-2148-1113-1133
    • Dwivedi B, Xue B, Lundin D, Edwards RA, Breitbart M (2013) A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes. BMC Evol Biol 13(33):33, 10.1186/1471-2148-1113-1133.
    • (2013) BMC Evol Biol , vol.13 , Issue.33 , pp. 33
    • Dwivedi, B.1    Xue, B.2    Lundin, D.3    Edwards, R.A.4    Breitbart, M.5
  • 46
    • 84870152928 scopus 로고    scopus 로고
    • Biosynthesis and function of posttranscriptional modifications of transfer RNAs
    • El Yacoubi B, Bailly M, de Crécy-Lagard V (2012) Biosynthesis and function of posttranscriptional modifications of transfer RNAs. Annu Rev Genet 46:69-95.
    • (2012) Annu Rev Genet , vol.46 , pp. 69-95
    • El Yacoubi, B.1    Bailly, M.2    De Crécy-Lagard, V.3
  • 47
    • 78650915625 scopus 로고    scopus 로고
    • Genome annotation and intraviral interactome for the Streptococcus pneumoniae virulent phage Dp-1
    • Sabri M, et al. (2011) Genome annotation and intraviral interactome for the Streptococcus pneumoniae virulent phage Dp-1. J Bacteriol 193(2):551-562.
    • (2011) J Bacteriol , vol.193 , Issue.2 , pp. 551-562
    • Sabri, M.1
  • 50
    • 44849140662 scopus 로고    scopus 로고
    • The Sorcerer II Global Ocean Sampling Expedition: Metagenomic characterization of viruses within aquatic microbial samples
    • Williamson SJ, et al. (2008) The Sorcerer II Global Ocean Sampling Expedition: Metagenomic characterization of viruses within aquatic microbial samples. PLoS ONE 3(1): e1456.
    • (2008) PLoS ONE , vol.3 , Issue.1
    • Williamson, S.J.1
  • 51
    • 84870665503 scopus 로고    scopus 로고
    • Ocean viruses: Rigorously evaluating the metagenomic sample-to-sequence pipeline
    • Duhaime MB, Sullivan MB (2012) Ocean viruses: Rigorously evaluating the metagenomic sample-to-sequence pipeline. Virology 434(2):181-186.
    • (2012) Virology , vol.434 , Issue.2 , pp. 181-186
    • Duhaime, M.B.1    Sullivan, M.B.2
  • 52
    • 84877278609 scopus 로고    scopus 로고
    • Sequencing platform and library preparation choices impact viral metagenomes
    • Solonenko SA, et al. (2013) Sequencing platform and library preparation choices impact viral metagenomes. BMC Genomics 14:320.
    • (2013) BMC Genomics , vol.14 , pp. 320
    • Solonenko, S.A.1
  • 53
    • 83655191007 scopus 로고    scopus 로고
    • The rare bacterial biosphere
    • Pedrós-Alió C (2012) The rare bacterial biosphere. Annu Rev Mar Sci 4:449-466.
    • (2012) Annu Rev Mar Sci , vol.4 , pp. 449-466
    • Pedrós-Alió, C.1
  • 54
    • 84868238641 scopus 로고    scopus 로고
    • Marine microbes see a sea of gradients
    • Stocker R (2012) Marine microbes see a sea of gradients. Science 338(6107):628-633.
    • (2012) Science , vol.338 , Issue.6107 , pp. 628-633
    • Stocker, R.1
  • 55
    • 71549117585 scopus 로고    scopus 로고
    • Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome
    • Wiśniewski JR, Zougman A, Mann M (2009) Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome. J Proteome Res 8(12):5674-5678.
    • (2009) J Proteome Res , vol.8 , Issue.12 , pp. 5674-5678
    • Wiśniewski, J.R.1    Zougman, A.2    Mann, M.3
  • 56
    • 58549089276 scopus 로고    scopus 로고
    • Shotgun metaproteomics of the human distal gut microbiota
    • Verberkmoes NC, et al. (2009) Shotgun metaproteomics of the human distal gut microbiota. ISME J 3(2):179-189.
    • (2009) ISME J , vol.3 , Issue.2 , pp. 179-189
    • Verberkmoes, N.C.1


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